Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 67 of 325
Found at i:23825091 original size:298 final size:302
Alignment explanation
Indices: 23824499--23825120 Score: 717
Period size: 303 Copynumber: 2.1 Consensus size: 302
23824489 ATTTAAGAGC
* * *
23824499 TTAAATAATTGTAAGTATAGATATACAATTGATGAAAATAATAAAATGTATAATAAAATTAAAAT
1 TTAAATAATAGTAAGTATAAATATACAATTGACGAAAATAATAAAATGTATAATAAAATTAAAAT
* * * * * *
23824564 TTACAAAAATATCAACTTGAAGCATTGGCAGAATGATAAAATAAATGTTTTGCTAATGTAATTGA
66 GTACAAAAACATCAAATTGAAGCATTAGCAGAATGATAAAATAAATGTTTTACTAATATAATTGA
* * * * *
23824629 TTGAATGTGGGTTTAAATCTCACTAGTTTCATATTTTTATTGATTTTTTAAAATAAAAGAATTAA
131 TTGAATGTGGATTCAAATCTCACCAGTTTCATATTTTTATTGAGTTTTTAAAATAAAAGAACTAA
* *
23824694 AATACCCTCGAATAATATAACTTATCTTTTATTACGAATAGGTATTTCTATATTTCTCATAACTG
196 AATACCCTCGAATAATATAACTTA-CTTTTATTACGAATAGGCATTTCTATATTTCTCATAACTA
** * *
23824759 AGTTGGTACTTGGTTAACTTATGACACCAACTCAATCAGGAGA
260 AGTTGGTACTCAGTTAACTCATGACACCAACTCAATCAGAAGA
* * * * *
23824802 TTAAATAATAGTAAGTATAAATATACAATTGACGGAGATGATAAAGTGTGTAATAAAATTAAAAT
1 TTAAATAATAGTAAGTATAAATATACAATTGACGAAAATAATAAAATGTATAATAAAATTAAAAT
* * * ** * * *
23824867 GTATAAAAACGTCAAATT-AATGCTTTAGTTGAGTGGTAAATTAAAAT-TTTTACTAATATAATT
66 GTACAAAAACATCAAATTGAA-GCATTAGCAGAATGATAAAAT-AAATGTTTTACTAATATAATT
*
23824930 TATTG-ATGTGGATTCAAATCTCACCAGTTTCAT-TTTTTATTG-GTTTTTAAAATAAAA-AGAC
129 GATTGAATGTGGATTCAAATCTCACCAGTTTCATATTTTTATTGAGTTTTTAAAATAAAAGA-AC
* * **
23824991 TAAAATACTCTTGAATAATATAACTTA-TTTTATTGTGAA-AGGGCATTTCTATAATTTC-CATA
193 TAAAATACCCTCGAATAATATAACTTACTTTTATTACGAATA-GGCATTTCTAT-ATTTCTCATA
* * * *
23825053 A-TCAAGTTGGTGCTCAGTTAACTCATGACACCAACTCAATTATAAGC
256 ACT-AAGTTGGTACTCAGTTAACTCATGACACCAACTCAATCAGAAGA
23825100 TTAAATAATAGTATAG-ATAAA
1 TTAAATAATAGTA-AGTATAAA
23825121 ATAATTATAA
Statistics
Matches: 270, Mismatches: 42, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
297 2 0.01
298 78 0.29
299 8 0.03
300 40 0.15
301 9 0.03
302 27 0.10
303 102 0.38
304 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (302 bp):
TTAAATAATAGTAAGTATAAATATACAATTGACGAAAATAATAAAATGTATAATAAAATTAAAAT
GTACAAAAACATCAAATTGAAGCATTAGCAGAATGATAAAATAAATGTTTTACTAATATAATTGA
TTGAATGTGGATTCAAATCTCACCAGTTTCATATTTTTATTGAGTTTTTAAAATAAAAGAACTAA
AATACCCTCGAATAATATAACTTACTTTTATTACGAATAGGCATTTCTATATTTCTCATAACTAA
GTTGGTACTCAGTTAACTCATGACACCAACTCAATCAGAAGA
Found at i:23826782 original size:3 final size:3
Alignment explanation
Indices: 23826762--23826860 Score: 94
Period size: 3 Copynumber: 33.0 Consensus size: 3
23826752 TATTTACCAC
* * * *
23826762 TAT TAA TAT TAC TAT TAT TAT TAT TAT T-T TAT TTT CTAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
23826807 TAT TAT CAT TAT TAT TAT TAG TAT T-T TAC TAT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23826854 TAAT TAT
1 T-AT TAT
23826861 CCCTTAATAT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.05
3 68 0.89
4 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23834020 original size:18 final size:17
Alignment explanation
Indices: 23833997--23834067 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
23833987 AGTTTGACAA
23833997 ATTAATACATCTCACCAT
1 ATTAATACAT-TCACCAT
* *
23834015 ATTAATACAAATCACCAA
1 ATTAATAC-ATTCACCAT
*
23834033 ATTAACACAGTTCACCAT
1 ATTAATACA-TTCACCAT
* *
23834051 AATAATATAATTCACCA
1 ATTAATA-CATTCACCA
23834068 AGTTAACATA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 39 0.93
19 2 0.05
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (17 bp):
ATTAATACATTCACCAT
Found at i:23834036 original size:36 final size:36
Alignment explanation
Indices: 23833994--23834082 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
23833984 CACAGTTTGA
* *
23833994 CAAATTAATACA-TCTCACCATATTAATACAAATCAC
1 CAAATTAACACAGT-TCACCATAATAATACAAATCAC
* *
23834030 CAAATTAACACAGTTCACCATAATAATATAATTCAC
1 CAAATTAACACAGTTCACCATAATAATACAAATCAC
* *
23834066 CAAGTTAACATAGTTCA
1 CAAATTAACACAGTTCA
23834083 TAATATAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 45 0.98
37 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.28
Consensus pattern (36 bp):
CAAATTAACACAGTTCACCATAATAATACAAATCAC
Found at i:23834082 original size:18 final size:17
Alignment explanation
Indices: 23834026--23834082 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
23834016 TTAATACAAA
*
23834026 TCACCAAATTAACACAGT
1 TCACC-AATTAACATAGT
* * *
23834044 TCACCATAATAATATAAT
1 TCACCA-ATTAACATAGT
23834062 TCACCAAGTTAACATAGT
1 TCACCAA-TTAACATAGT
23834080 TCA
1 TCA
23834083 TAATATAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (17 bp):
TCACCAATTAACATAGT
Found at i:23835827 original size:32 final size:31
Alignment explanation
Indices: 23835762--23835828 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
23835752 ACCTAAAATT
* *
23835762 ATTAATTCTAATTATTCTAATATTTTATATA
1 ATTAATTCTAATTATTCTAATATATAATATA
*
23835793 ATTAATTCTCAATTATT-TAATTATATAATCTA
1 ATTAATTCT-AATTATTCTAA-TATATAATATA
23835825 ATTA
1 ATTA
23835829 TGATTTCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATATA
Found at i:23836310 original size:15 final size:15
Alignment explanation
Indices: 23836286--23836321 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23836276 TAAGTTATTT
* *
23836286 TATTTAATTATTTAA
1 TATTTTATTATTCAA
23836301 TATTTTATTATTCAA
1 TATTTTATTATTCAA
23836316 TATTTT
1 TATTTT
23836322 TATTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTATTATTCAA
Found at i:23836704 original size:21 final size:21
Alignment explanation
Indices: 23836666--23836706 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23836656 TTTTACTCAC
*
23836666 TTAATTATTATTATTTTTAAT
1 TTAATTATTAATATTTTTAAT
23836687 TTAATTATTTAAT-TTTTTAA
1 TTAATTA-TTAATATTTTTAA
23836707 AATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTAATTATTAATATTTTTAAT
Found at i:23840598 original size:22 final size:21
Alignment explanation
Indices: 23840550--23840598 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
23840540 TCATTTTCTG
*
23840550 TTATTTATTAATTTTAATATT
1 TTATTTATTAATTTAAATATT
23840571 TATATTTATT-ATATTAAATATAT
1 T-TATTTATTAAT-TTAAATAT-T
23840594 TTATT
1 TTATT
23840599 ATATGTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 19 0.79
23 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATTAATTTAAATATT
Found at i:23840704 original size:28 final size:27
Alignment explanation
Indices: 23840661--23840734 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
23840651 TATAGTGTAT
*
23840661 TATATATATA-ATTTTTATATATCATA
1 TATATATATATATTTTTAAATATCATA
*
23840687 TATATATATATGTGTTTTAAATAT--TA
1 TATATATATATAT-TTTTAAATATCATA
* *
23840713 TGT-TATATATATTTTTCAATAT
1 TATATATATATATTTTTAAATAT
23840735 TATTAGTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
24 9 0.22
25 8 0.20
26 14 0.34
27 1 0.02
28 9 0.22
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATATTTTTAAATATCATA
Found at i:23840733 original size:24 final size:27
Alignment explanation
Indices: 23840691--23840746 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 27
23840681 ATCATATATA
*
23840691 TATATATGTGTTTTAAATATTA-T-GT
1 TATATATATGTTTTAAATATTATTAGT
*
23840716 TATATATAT-TTTTCAATATTATTAGT
1 TATATATATGTTTTAAATATTATTAGT
23840742 TATAT
1 TATAT
23840747 TTTCTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 9 0.33
26 7 0.26
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (27 bp):
TATATATATGTTTTAAATATTATTAGT
Found at i:23841054 original size:24 final size:24
Alignment explanation
Indices: 23841002--23841069 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
23840992 TCGTACTATT
* *
23841002 CATATATTTTTATGTTATTTCGTA
1 CATATATCTTTATATTATTTCGTA
23841026 CATATATCTTTATATTATTT-GTTA
1 CATATATCTTTATATTATTTCG-TA
* *
23841050 TATATTTCTTT-TATTATTTC
1 CATATATCTTTATATTATTTC
23841070 ATGTATATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (24 bp):
CATATATCTTTATATTATTTCGTA
Found at i:23841076 original size:23 final size:24
Alignment explanation
Indices: 23841003--23841077 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
23840993 CGTACTATTC
* * * *
23841003 ATATATTTTTATGTTATTTCGTAC
1 ATATATCTTTATATTATTTCATAT
**
23841027 ATATATCTTTATATTATTTGTTAT
1 ATATATCTTTATATTATTTCATAT
* *
23841051 ATATTTCTTT-TATTATTTCATGT
1 ATATATCTTTATATTATTTCATAT
23841074 ATAT
1 ATAT
23841078 GTTGTTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 14 0.33
24 28 0.67
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (24 bp):
ATATATCTTTATATTATTTCATAT
Found at i:23853577 original size:74 final size:74
Alignment explanation
Indices: 23853463--23853626 Score: 206
Period size: 74 Copynumber: 2.2 Consensus size: 74
23853453 TCAATTTCTG
* * * * * *
23853463 TTCAATTTATATTTTTCAAAAAAATCAACTCATGTTCGAGAGGTGAGTTGGGCCTC-GAGGTACG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTCGAGAGGTGAATTGAGCCTCAG-GGCAAG
*
23853527 TTGAGGTATT
65 CTGAGGTATT
*
23853537 TTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAGGGCAAG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATT-CGAGAGGTGAATTGAGCCTCAGGGCAAG
23853601 CTGAGGTATT
65 CTGAGGTATT
* *
23853611 TTCAATTCCTGTTTTT
1 TTCAATTTCTATTTTT
23853627 TTAATGCATG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
73 17 0.22
74 60 0.77
75 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (74 bp):
TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTCGAGAGGTGAATTGAGCCTCAGGGCAAGC
TGAGGTATT
Found at i:23853921 original size:15 final size:15
Alignment explanation
Indices: 23853897--23853926 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23853887 GTATTTTCAG
*
23853897 TTTCTGTTTTTCAAA
1 TTTCTATTTTTCAAA
23853912 TTTCTATTTTTCAAA
1 TTTCTATTTTTCAAA
23853927 AATCAACTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTCTATTTTTCAAA
Found at i:23853972 original size:90 final size:89
Alignment explanation
Indices: 23853717--23854044 Score: 380
Period size: 89 Copynumber: 3.7 Consensus size: 89
23853707 ATTCTGTTGC
* * *
23853717 TCAAATTCTGTTTTT-AATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGC
1 TCAATTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
23853781 CTCAGG--ACACGCTGAGGTAATT
66 CTCAGGTCACATGCTGAGGTATTT
* * * *
23853803 TGAATTTCTGTTTCTCAATTTCTGCTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTG-
1 TCAATTTCTGTTTTTCAATTTCTACTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
23853867 GGCT-TGGCTCACATGCTGAGGTATTT
64 GCCTCAGG-TCACATGCTGAGGTATTT
* *
23853893 TCAGTTTCTGTTTTTCAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TCAATTTCTGTTTTTC-AATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
23853958 CCTCAGGTCACATGCCGATGTATTT
65 CCTCAGGTCACATGCTGAGGTATTT
* * * * ** *
23853983 TCAAATTATG-TTTTCAAATTATGTTTTTCAAAAATCAACTCAGATTGCGAGAGGTGAGTTGA
1 TCAATTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
23854045 ACCTTTTAAT
Statistics
Matches: 205, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
86 12 0.06
87 15 0.07
88 46 0.22
89 65 0.32
90 53 0.26
91 14 0.07
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (89 bp):
TCAATTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGTCACATGCTGAGGTATTT
Found at i:23854012 original size:14 final size:14
Alignment explanation
Indices: 23853975--23854014 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
23853965 TCACATGCCG
23853975 ATGTATTTTCAAATT
1 ATGT-TTTTCAAATT
23853990 ATG-TTTTCAAATT
1 ATGTTTTTCAAATT
23854003 ATGTTTTTCAAA
1 ATGTTTTTCAAA
23854015 AATCAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.54
14 8 0.33
15 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (14 bp):
ATGTTTTTCAAATT
Found at i:23854071 original size:14 final size:14
Alignment explanation
Indices: 23854048--23854081 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23854038 GAGTTGAACC
*
23854048 TTTT-AATTTATGT
1 TTTTCAATTTATAT
23854061 TTTTCAATTTATAT
1 TTTTCAATTTATAT
23854075 TTTTCAA
1 TTTTCAA
23854082 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:23854322 original size:44 final size:43
Alignment explanation
Indices: 23854268--23854412 Score: 182
Period size: 44 Copynumber: 3.3 Consensus size: 43
23854258 TAGATTTGGC
*
23854268 CTCTTTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAATCTTGT
1 CTCTCTGAAGTTGCAGTGGAGCAGGTCAAAGTT-CAAATCTTGT
*
23854312 CTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAATCTTGT
1 CTCTCTGAAGTTGCAGTGGAGCAGGTCAAAGTT-CAAATCTTGT
* * * * *
23854356 CTCCCTGAAGTTGCAGTGGAGCTGATCAAGGATATCAAATCTTAT
1 CTCTCTGAAGTTGCAGTGGAGCAGGTCAAAG-T-TCAAATCTTGT
*
23854401 CTTTCTGAAGTT
1 CTCTCTGAAGTT
23854413 ACAAGTGAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 67 0.76
45 20 0.23
46 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
CTCTCTGAAGTTGCAGTGGAGCAGGTCAAAGTTCAAATCTTGT
Found at i:23854535 original size:88 final size:89
Alignment explanation
Indices: 23854392--23854566 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 89
23854382 CAAGGATATC
* * ** * *
23854392 AAATCTTATCTTTCTGAAGTTACAAGTGAAGTGGATCGAAGCCACAAATCTCATATCCTTGAAGT
1 AAATCTTATCTTTATGAAGCTACAAGTGAAGCAGATCAAAGCCACAAATCTCATATCCTTAAAGT
*
23854457 TACATTAGAGAAGATTGAAGCTGT
66 TACATCAGAGAAGATTGAAGCTGT
* *
23854481 AAATCTTATCTTTATGAAGCTGCATG-GAAGCAGATCAAAGCCACAAATCTCATATCCTTAAAGT
1 AAATCTTATCTTTATGAAGCTACAAGTGAAGCAGATCAAAGCCACAAATCTCATATCCTTAAAGT
* *
23854545 TACATCGGAGTAGATTGAAGCT
66 TACATCAGAGAAGATTGAAGCT
23854567 ACAAGGCATA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 53 0.71
89 22 0.29
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (89 bp):
AAATCTTATCTTTATGAAGCTACAAGTGAAGCAGATCAAAGCCACAAATCTCATATCCTTAAAGT
TACATCAGAGAAGATTGAAGCTGT
Found at i:23855287 original size:11 final size:12
Alignment explanation
Indices: 23855261--23855290 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23855251 ATTCAAGGTG
23855261 ATTTTTATTTCT
1 ATTTTTATTTCT
23855273 ATTTTTATTTC-
1 ATTTTTATTTCT
23855284 ATTTTTA
1 ATTTTTA
23855291 AACCTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTATTTCT
Found at i:23855973 original size:22 final size:21
Alignment explanation
Indices: 23855925--23855973 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
23855915 TCATTTTCTG
*
23855925 TTATTTATTAATTTTAATATT
1 TTATTTATTAATTTAAATATT
23855946 TATATTTATT-ATATTAAATATAT
1 T-TATTTATTAAT-TTAAATAT-T
23855969 TTATT
1 TTATT
23855974 ATATGTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 19 0.79
23 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATTAATTTAAATATT
Found at i:23856090 original size:25 final size:27
Alignment explanation
Indices: 23856062--23856118 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
23856052 ATATATCATA
* *
23856062 TATATATGTGTTTTAAATATTA-T-GT
1 TATATATATATTTTAAATATTATTAGT
*
23856087 TATATATATATTTTCAATATTATTAGT
1 TATATATATATTTTAAATATTATTAGT
23856114 TATAT
1 TATAT
23856119 TTTCTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 19 0.70
26 1 0.04
27 7 0.26
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (27 bp):
TATATATATATTTTAAATATTATTAGT
Found at i:23856115 original size:27 final size:25
Alignment explanation
Indices: 23856035--23856118 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
23856025 ATATAGTGTA
* *
23856035 TTATATATATAATTTTTATATATCAT-
1 TTATATATAT-A-TTTTAAATATTATG
* * *
23856061 ATATATATGTGTTTTAAATATTATG
1 TTATATATATATTTTAAATATTATG
*
23856086 TTATATATATATTTTCAATATTATTAG
1 TTATATATATATTTTAAATATTA-T-G
23856113 TTATAT
1 TTATAT
23856119 TTTCTTATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 11 0.24
25 19 0.41
26 9 0.20
27 7 0.15
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (25 bp):
TTATATATATATTTTAAATATTATG
Found at i:23856401 original size:24 final size:24
Alignment explanation
Indices: 23856370--23856440 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
23856360 AATATCGTAC
*
23856370 TATT-CATATATTTTTATGTTATT
1 TATTACATATATTTTTATATTATT
*
23856393 TATTACATATATCTTTATATTATT
1 TATTACATATATTTTTATATTATT
* *
23856417 TGTT--ATATATTTCTTTTATTATT
1 TATTACATATATTT-TTATATTATT
23856440 T
1 T
23856441 CATGTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 7 0.17
23 14 0.34
24 20 0.49
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (24 bp):
TATTACATATATTTTTATATTATT
Found at i:23856448 original size:23 final size:24
Alignment explanation
Indices: 23856375--23856449 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
23856365 CGTACTATTC
* * *
23856375 ATATATTTTTATGTTATTT-ATTAC
1 ATATATCTTTATATTATTTCA-TAT
**
23856399 ATATATCTTTATATTATTTGTTAT
1 ATATATCTTTATATTATTTCATAT
* *
23856423 ATATTTCTTT-TATTATTTCATGT
1 ATATATCTTTATATTATTTCATAT
23856446 ATAT
1 ATAT
23856450 GTTGTTAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 14 0.33
24 28 0.67
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATATCTTTATATTATTTCATAT
Found at i:23858006 original size:14 final size:13
Alignment explanation
Indices: 23857987--23858016 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
23857977 CTTTTGAGTG
23857987 TTTTTTATATTTAT
1 TTTTTTAT-TTTAT
23858001 TTTTTTATTTTAT
1 TTTTTTATTTTAT
23858014 TTT
1 TTT
23858017 AAAAGGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:23860385 original size:213 final size:213
Alignment explanation
Indices: 23860011--23860444 Score: 859
Period size: 213 Copynumber: 2.0 Consensus size: 213
23860001 CATAAAGATA
*
23860011 TGATTTAATTCGGTTTAAGTAAAATCTCATAAGTTTTATACGGTTAATTATAAGTCGGTTTGCAA
1 TGATTTGATTCGGTTTAAGTAAAATCTCATAAGTTTTATACGGTTAATTATAAGTCGGTTTGCAA
23860076 AACGATTATATAAACTGTGGTATAAGTTTTTATGGTGGACTTTCATAAGATGTTATTTGGACTGA
66 AACGATTATATAAACTGTGGTATAAGTTTTTATGGTGGACTTTCATAAGATGTTATTTGGACTGA
23860141 ACTTTAGAAGCTGTGGATTTTATTTCCGAATGTTTGACGTCGGTTTAATATTGTTTCAAATATAA
131 ACTTTAGAAGCTGTGGATTTTATTTCCGAATGTTTGACGTCGGTTTAATATTGTTTCAAATATAA
23860206 TGAACAAAAAGGTTTTCT
196 TGAACAAAAAGGTTTTCT
23860224 TGATTTGATTCGGTTTAAGTAAAATCTCATAAGTTTTATACGGTTAATTATAAGTCGGTTTGCAA
1 TGATTTGATTCGGTTTAAGTAAAATCTCATAAGTTTTATACGGTTAATTATAAGTCGGTTTGCAA
23860289 AACGATTATATAAACTGTGGTATAAGTTTTTATGGTGGACTTTCATAAGATGTTATTTGGACTGA
66 AACGATTATATAAACTGTGGTATAAGTTTTTATGGTGGACTTTCATAAGATGTTATTTGGACTGA
23860354 ACTTTAGAAGCTGTGGATTTTATTTCCGAATGTTTGACGTCGGTTTAATATTGTTTCAAATATAA
131 ACTTTAGAAGCTGTGGATTTTATTTCCGAATGTTTGACGTCGGTTTAATATTGTTTCAAATATAA
23860419 TGAACAAAAAGGTTTTCT
196 TGAACAAAAAGGTTTTCT
23860437 TGATTTGA
1 TGATTTGA
23860445 ATTAAAGTTT
Statistics
Matches: 220, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 220 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (213 bp):
TGATTTGATTCGGTTTAAGTAAAATCTCATAAGTTTTATACGGTTAATTATAAGTCGGTTTGCAA
AACGATTATATAAACTGTGGTATAAGTTTTTATGGTGGACTTTCATAAGATGTTATTTGGACTGA
ACTTTAGAAGCTGTGGATTTTATTTCCGAATGTTTGACGTCGGTTTAATATTGTTTCAAATATAA
TGAACAAAAAGGTTTTCT
Found at i:23860680 original size:16 final size:16
Alignment explanation
Indices: 23860661--23860720 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
23860651 TTACATTTGG
23860661 TTTTAAAAATATTTCA
1 TTTTAAAAATATTTCA
* * *
23860677 TTTTAGTTATATTTTTCA
1 TTTTA--AAAATATTTCA
*
23860695 TTTTAAAAAAATTGT-A
1 TTTTAAAAATATT-TCA
23860711 TTTTAAAAAT
1 TTTTAAAAAT
23860721 TTTAAAAAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 19 0.58
17 1 0.03
18 13 0.39
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAAAAATATTTCA
Found at i:23873626 original size:35 final size:36
Alignment explanation
Indices: 23873587--23873664 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
23873577 GGACTTTCTA
*
23873587 TAAGCCCTCTCCC-TGTGTGGGAG-AAGGACCCCCTG
1 TAAGCCCTCTCCCATGTGTAGGAGCAA-GACCCCCTG
* * *
23873622 TAAGCCTTCTCCCATGTGTAGGAGCAAGACCTCTTG
1 TAAGCCCTCTCCCATGTGTAGGAGCAAGACCCCCTG
23873658 TAAGCCC
1 TAAGCCC
23873665 CTCATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 12 0.33
36 22 0.61
37 2 0.06
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (36 bp):
TAAGCCCTCTCCCATGTGTAGGAGCAAGACCCCCTG
Found at i:23873660 original size:36 final size:35
Alignment explanation
Indices: 23873587--23873713 Score: 93
Period size: 33 Copynumber: 3.7 Consensus size: 35
23873577 GGACTTTCTA
* * * *
23873587 TAAGCCCTCTCCC-TGTGTGGGAGAAGGACCCCCTG
1 TAAGCCTTCTCCCATGTGTAGGAGAA-GACCTCTTG
23873622 TAAGCCTTCTCCCATGTGTAGGAGCAAGACCTCTTG
1 TAAGCCTTCTCCCATGTGTAGGAG-AAGACCTCTTG
* * * *
23873658 TAAGCC--C-CTCATATATAGGAGTAGGACCTCTTG
1 TAAGCCTTCTCCCATGTGTAGGAG-AAGACCTCTTG
* * *
23873691 TAAACCTCCT-CCATGTGTGGGAG
1 TAAGCCTTCTCCCATGTGTAGGAG
23873714 TAGGAAATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
33 26 0.36
34 1 0.01
35 22 0.30
36 22 0.30
37 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (35 bp):
TAAGCCTTCTCCCATGTGTAGGAGAAGACCTCTTG
Found at i:23874024 original size:14 final size:14
Alignment explanation
Indices: 23874007--23874069 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
23873997 CCCATGTATT
23874007 CCCTCCCACAAGTA
1 CCCTCCCACAAGTA
23874021 CCCTTCCCA-AAGTA
1 CCC-TCCCACAAGTA
23874035 CCCAT-CCACAA-TA
1 CCC-TCCCACAAGTA
* *
23874048 CCTTCCCACGAGTA
1 CCCTCCCACAAGTA
*
23874062 CCTTCCCA
1 CCCTCCCA
23874070 TAGAACCACC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.02
13 12 0.29
14 24 0.57
15 5 0.12
ACGTcount: A:0.27, C:0.48, G:0.06, T:0.19
Consensus pattern (14 bp):
CCCTCCCACAAGTA
Found at i:23879146 original size:86 final size:87
Alignment explanation
Indices: 23878986--23879147 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 87
23878976 AATACTTACA
*
23878986 TTTTTTTTAGCAATTTTACCTTTGTTCTTTCTTTTTTTAAGTTAAATTTAGTCTGCTTCCAACTT
1 TTTTTTTTAGCAATTTTACCTTTGTTCTTTCTTTTTTTAAGCTAAATTTAGTCTGCTTCCAACTT
23879051 TCAAAAAGAGTGTTATACATTT
66 TCAAAAAGAGTGTTATACATTT
* * * *
23879073 TTTTTTTTATCAATTTTGCTTTTGTTCTTTCTTTCTTTT-AGCTAAATTT-GTCTGCTTCGAACT
1 TTTTTTTTAGCAATTTTACCTTTGTTCTTTCTTT-TTTTAAGCTAAATTTAGTCTGCTTCCAACT
23879136 TTCAAAAAGAGT
65 TTCAAAAAGAGT
23879148 TTGCTTGCCC
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 25 0.36
87 40 0.58
88 4 0.06
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (87 bp):
TTTTTTTTAGCAATTTTACCTTTGTTCTTTCTTTTTTTAAGCTAAATTTAGTCTGCTTCCAACTT
TCAAAAAGAGTGTTATACATTT
Found at i:23885243 original size:46 final size:46
Alignment explanation
Indices: 23885181--23885547 Score: 522
Period size: 46 Copynumber: 8.0 Consensus size: 46
23885171 AGTGTGCTCT
23885181 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23885227 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23885273 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23885319 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23885365 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
23885411 GTGACATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
23885457 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
23885504 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
23885548 TCATGTCGAA
Statistics
Matches: 295, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 254 0.86
47 40 0.14
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23887753 original size:37 final size:37
Alignment explanation
Indices: 23887692--23887800 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
23887682 AGCTCAGATG
* *
23887692 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23887729 AAATCTCCACACGTAGTCAACGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
23887766 TACTCTCCACACGTAGTCATCAGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23887801 ATATATTTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23888015 original size:47 final size:47
Alignment explanation
Indices: 23887963--23888148 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
23887953 TTTCACACTA
* * * *
23887963 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
23888010 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
23888057 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
23888104 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
23888149 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:23888027 original size:25 final size:25
Alignment explanation
Indices: 23887999--23888074 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
23887989 ATGTTCATAT
23887999 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
* * *
23888024 TCA-CACATAT-G-CATGC-TCACGT-
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
23888046 TCATCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
23888071 TCAC
1 TCAC
23888075 ATATATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:23888075 original size:22 final size:22
Alignment explanation
Indices: 23888048--23888123 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
23888038 GCTCACGTTC
23888048 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
23888070 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
23888094 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
23888117 ATCACAT
1 ATCACAT
23888124 ATATACACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:23891336 original size:8 final size:8
Alignment explanation
Indices: 23891323--23891359 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
23891313 TTTAAATACC
23891323 ATTTTAGA
1 ATTTTAGA
23891331 ATTTTAGA
1 ATTTTAGA
*
23891339 ATTTTA-T
1 ATTTTAGA
23891346 ATTTTAGA
1 ATTTTAGA
23891354 ATTTTA
1 ATTTTA
23891360 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (8 bp):
ATTTTAGA
Found at i:23891351 original size:15 final size:15
Alignment explanation
Indices: 23891331--23891361 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23891321 CCATTTTAGA
23891331 ATTTTAGAATTTTAT
1 ATTTTAGAATTTTAT
23891346 ATTTTAGAATTTTAT
1 ATTTTAGAATTTTAT
23891361 A
1 A
23891362 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTTTAGAATTTTAT
Found at i:23891387 original size:22 final size:21
Alignment explanation
Indices: 23891344--23891419 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
23891334 TTAGAATTTT
* * *
23891344 ATATTTTAGAATTTTATAAAA
1 ATATTTTAAAATTTTTTTAAA
23891365 ATATTTTAAAACTTTTTTTAAA
1 ATATTTTAAAA-TTTTTTTAAA
* *
23891387 ATATTTTTACATTTTTTGTAATA
1 ATATTTTAAAATTTTTT-TAA-A
23891410 ATATTATTAA
1 ATATT-TTAA
23891420 TTTCAACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 16 0.36
22 20 0.44
23 6 0.13
24 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATTTTAAAATTTTTTTAAA
Found at i:23891412 original size:23 final size:20
Alignment explanation
Indices: 23891377--23891422 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
23891367 ATTTTAAAAC
*
23891377 TTTTTTTAAAATATTTTTACA
1 TTTTTTTAAAATATTATTA-A
23891398 TTTTTTGTAATAATATTATTAA
1 TTTTTT-TAA-AATATTATTAA
23891420 TTT
1 TTT
23891423 CAACATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 7 0.32
23 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTTTAAAATATTATTAA
Found at i:23891509 original size:9 final size:9
Alignment explanation
Indices: 23891497--23891546 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
23891487 TTTTTCTAGA
23891497 TTTTATATT
1 TTTTATATT
*
23891506 TTTTAAATT
1 TTTTATATT
23891515 TTTCTATATT
1 TTT-TATATT
*
23891525 TATTTCTATT
1 T-TTTATATT
23891535 TTTTATATT
1 TTTTATATT
23891544 TTT
1 TTT
23891547 AATGTGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 21 0.60
10 12 0.34
11 2 0.06
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTATATT
Found at i:23891522 original size:19 final size:18
Alignment explanation
Indices: 23891497--23891546 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
23891487 TTTTTCTAGA
23891497 TTTTATATTTTTTAAATT
1 TTTTATATTTTTTAAATT
**
23891515 TTTCTATATTTATTTCTATT
1 TTT-TATATTT-TTTAAATT
23891535 TTTTATATTTTT
1 TTTTATATTTTT
23891547 AATGTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATTTTTTAAATT
Found at i:23894754 original size:26 final size:26
Alignment explanation
Indices: 23894719--23894769 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
23894709 AATGTGAAAG
*
23894719 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
23894745 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
23894770 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:23894853 original size:102 final size:103
Alignment explanation
Indices: 23894641--23894861 Score: 365
Period size: 102 Copynumber: 2.2 Consensus size: 103
23894631 TGTATATAAA
** * *
23894641 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
23894706 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
23894744 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATA-CT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
23894807 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
23894846 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
23894862 GATATCCATT
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
102 57 0.51
103 53 0.48
104 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:23894895 original size:70 final size:70
Alignment explanation
Indices: 23894782--23894930 Score: 223
Period size: 70 Copynumber: 2.1 Consensus size: 70
23894772 TCATTGGTGG
*
23894782 TGCTAAGTGCGATATCCACCATACTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
1 TGCTAAGTGCGATATCCACCATACTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
23894846 AGGGGT
66 A-GGGT
**
23894852 TGCTAAGTGCGATATCCATTGTATA-TTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCC
1 TGCTAAGTGCGATATCCA--CCATACTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCC
23894915 CGAGGGT
64 CGAGGGT
23894922 TGCTAAGTG
1 TGCTAAGTG
23894931 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
70 55 0.75
71 15 0.21
72 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATACTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGT
Found at i:23899852 original size:12 final size:12
Alignment explanation
Indices: 23899819--23899852 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23899809 TTTAAAGACG
23899819 GTTTTATTTAAT
1 GTTTTATTTAAT
* *
23899831 GTATTGTTTAAT
1 GTTTTATTTAAT
23899843 GTTTTATTTA
1 GTTTTATTTA
23899853 TTTATTTAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
GTTTTATTTAAT
Found at i:23915648 original size:20 final size:22
Alignment explanation
Indices: 23915609--23915648 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
23915599 TGTTCATCAA
*
23915609 TTTTTCTCTTCATTTTTCTTAG
1 TTTTTCTCTTCATTTCTCTTAG
23915631 TTTTTCT-TTC-TTTCTCTT
1 TTTTTCTCTTCATTTCTCTT
23915649 GCTCGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 3 0.18
22 7 0.41
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTTCTCTTCATTTCTCTTAG
Found at i:23915804 original size:4 final size:4
Alignment explanation
Indices: 23915795--23915820 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23915785 ACGAAAGAAG
23915795 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
23915821 AAACAAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:23929866 original size:27 final size:27
Alignment explanation
Indices: 23929817--23929876 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
23929807 TATTTTTTAC
23929817 ATAAAAATATAAAAATTCAAAAAACTT-T
1 ATAAAAATATAAAAATT-AAAAAA-TTAT
*
23929845 ATAAAAATATTAAATATT-AAAAATTAT
1 ATAAAAATA-TAAAAATTAAAAAATTAT
23929872 ATAAA
1 ATAAA
23929877 CCTACTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 11 0.38
28 9 0.31
29 7 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAAAAATATAAAAATTAAAAAATTAT
Found at i:23929923 original size:27 final size:25
Alignment explanation
Indices: 23929880--23929932 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
23929870 ATATAAACCT
23929880 ACTTAAATTAT-AAAAAATCATAAAA
1 ACTTAAATTATAAAAAAAT-ATAAAA
*
23929905 ACTTATAATTATTATAAAAATATAAAA
1 ACTTA-AATTA-TAAAAAAATATAAAA
23929932 A
1 A
23929933 AATTTAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 5 0.21
27 8 0.33
28 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
ACTTAAATTATAAAAAAATATAAAA
Found at i:23929932 original size:28 final size:29
Alignment explanation
Indices: 23929886--23929953 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
23929876 ACCTACTTAA
* *
23929886 ATTATAAAAAATCATAAAAACTTATAAT-T
1 ATTATAAAAAATCATAAAAAATT-TAATAG
23929915 ATTAT-AAAAAT-ATAAAAAAATTTAATAG
1 ATTATAAAAAATCAT-AAAAAATTTAATAG
23929943 ATTATAAAAAA
1 ATTATAAAAAA
23929954 ATGTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.18
28 18 0.53
29 10 0.29
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTATAAAAAATCATAAAAAATTTAATAG
Found at i:23930000 original size:18 final size:20
Alignment explanation
Indices: 23929958--23929994 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
23929948 AAAAAAATGT
*
23929958 AAATTAATAAAACTTATTTA
1 AAATTAATAAAACATATTTA
23929978 AAATTAA-AAAACATATT
1 AAATTAATAAAACATATT
23929995 AGAATTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTAATAAAACATATTTA
Found at i:23932586 original size:17 final size:17
Alignment explanation
Indices: 23932566--23932607 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
23932556 CCTGTAGGGG
*
23932566 TCACACGGCTGTGTGAC
1 TCACACGGCCGTGTGAC
23932583 TCACACGGCCGTGTGAC
1 TCACACGGCCGTGTGAC
23932600 TCACACGG
1 TCACACGG
23932608 TTAGGAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (17 bp):
TCACACGGCCGTGTGAC
Found at i:23933198 original size:22 final size:23
Alignment explanation
Indices: 23933173--23933218 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23933163 CAACCAAATC
23933173 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
23933195 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
23933218 A
1 A
23933219 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:23933224 original size:23 final size:23
Alignment explanation
Indices: 23933180--23933224 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23933170 ATCAATTCAA
*
23933180 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
23933203 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
23933225 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:23936703 original size:42 final size:42
Alignment explanation
Indices: 23936627--23936754 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
23936617 GTGTGCCAAA
23936627 AGAAGCTCGAAAGA--TGAACAGAAGCTCATAAGAGCTGAAT
1 AGAAGCTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTGAAT
*
23936667 AGAAGCTCGAAAGAGCTGAATAGAAGCTCGA-AAGAGCTGAAT
1 AGAAGCTCGAAAGAGCTGAACAGAAGCTC-ATAAGAGCTGAAT
* * * * *
23936709 AGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTGAAC
1 AGAAGCTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTGAAT
23936751 AGAA
1 AGAA
23936755 AGTAAAATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
40 14 0.18
41 1 0.01
42 61 0.79
43 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (42 bp):
AGAAGCTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTGAAT
Found at i:23936744 original size:63 final size:61
Alignment explanation
Indices: 23936627--23936754 Score: 159
Period size: 63 Copynumber: 2.1 Consensus size: 61
23936617 GTGTGCCAAA
* * * *
23936627 AGAAGCTCGAAAGATGAACAGAAGCTCATAAGAGCTGAATAGAAGCTCGAAAGAGCTGAAT
1 AGAAGCTCGAAAGATGAACAGAAGCTCATAAGAGCTAAACAGAAACTCGAAAGAGCTGAAC
* * *
23936688 AGAAGCTCGAAAGAGCTGAATAGAAGCTCGTAAGAGCTAAACAGAAACTC-ATAAGAGTTGAAC
1 AGAAGCTCGAAAGA--TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCGA-AAGAGCTGAAC
23936751 AGAA
1 AGAA
23936755 AGTAAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 14 0.25
62 1 0.02
63 42 0.74
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (61 bp):
AGAAGCTCGAAAGATGAACAGAAGCTCATAAGAGCTAAACAGAAACTCGAAAGAGCTGAAC
Found at i:23936755 original size:21 final size:21
Alignment explanation
Indices: 23936641--23936754 Score: 133
Period size: 21 Copynumber: 5.4 Consensus size: 21
23936631 GCTCGAAAGA
23936641 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
*
23936662 TGAATAGAAGCTCGA-AAGAGC
1 TGAACAGAAGCTC-ATAAGAGC
*
23936683 TGAATAGAAGCTCGA-AAGAGC
1 TGAACAGAAGCTC-ATAAGAGC
* *
23936704 TGAATAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * *
23936725 TAAACAGAAACTCATAAGAGT
1 TGAACAGAAGCTCATAAGAGC
23936746 TGAACAGAA
1 TGAACAGAA
23936755 AGTAAAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
21 82 0.99
22 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.16
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:23945570 original size:17 final size:17
Alignment explanation
Indices: 23945548--23945585 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
23945538 GAACAGTAGT
23945548 CTGAATAGTTATTTTTG
1 CTGAATAGTTATTTTTG
23945565 CTGAATAGTTATTTTTG
1 CTGAATAGTTATTTTTG
23945582 CTGA
1 CTGA
23945586 TTAAAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (17 bp):
CTGAATAGTTATTTTTG
Found at i:23945802 original size:6 final size:6
Alignment explanation
Indices: 23945791--23945848 Score: 116
Period size: 6 Copynumber: 9.7 Consensus size: 6
23945781 TGCTTAGTTG
23945791 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
23945839 GTATAT GTAT
1 GTATAT GTAT
23945849 GTGTGTGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:23945857 original size:10 final size:10
Alignment explanation
Indices: 23945794--23945866 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
23945784 TTAGTTGGTA
*
23945794 TATGTATATG
1 TATGTGTATG
*
23945804 TATATGTA--
1 TATGTGTATG
*
23945812 TATGTATATG
1 TATGTGTATG
*
23945822 TATATGTA--
1 TATGTGTATG
*
23945830 TATGTATATG
1 TATGTGTATG
*
23945840 TATATGTATG
1 TATGTGTATG
*
23945850 TGTGTGTATG
1 TATGTGTATG
23945860 TATGTGT
1 TATGTGT
23945867 GTTTATAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
8 12 0.26
10 34 0.74
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (10 bp):
TATGTGTATG
Found at i:23945861 original size:14 final size:14
Alignment explanation
Indices: 23945842--23945868 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23945832 TGTATATGTA
23945842 TATGTATGTGTGTG
1 TATGTATGTGTGTG
23945856 TATGTATGTGTGT
1 TATGTATGTGTGT
23945869 TTATAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (14 bp):
TATGTATGTGTGTG
Found at i:23946073 original size:16 final size:16
Alignment explanation
Indices: 23946052--23946085 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23946042 CTAGCATATA
23946052 TACTCAATTTTAAAAT
1 TACTCAATTTTAAAAT
23946068 TACTCAATTTTAAAAT
1 TACTCAATTTTAAAAT
23946084 TA
1 TA
23946086 TTCATACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TACTCAATTTTAAAAT
Found at i:23954273 original size:4 final size:5
Alignment explanation
Indices: 23954251--23954289 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
23954241 ATTTGTGTTC
23954251 TTTAT TATTAT TATTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTT
23954290 TCACAAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.09
5 20 0.62
6 9 0.28
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:23961692 original size:4 final size:5
Alignment explanation
Indices: 23961671--23961708 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
23961661 GTGTTCTTTA
23961671 TTATT ATTATT ATTA-T TTATT TTATT TTATT TTATT TT
1 TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TT
23961709 TCACAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.10
5 19 0.61
6 9 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:23965097 original size:12 final size:12
Alignment explanation
Indices: 23965082--23965112 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23965072 TTCTCTTTTA
23965082 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
23965094 TTTTTCTTTCTC
1 TTTTTCTTTCCC
23965106 TTTTTCT
1 TTTTTCT
23965113 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:23965213 original size:16 final size:16
Alignment explanation
Indices: 23965192--23965222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23965182 TTTATTATTT
23965192 TATTAACATAATATAA
1 TATTAACATAATATAA
*
23965208 TATTAATATAATATA
1 TATTAACATAATATA
23965223 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:23968687 original size:16 final size:16
Alignment explanation
Indices: 23968666--23968696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23968656 CTAAGGTAAT
*
23968666 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
23968682 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
23968697 TCAAAAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:23968758 original size:89 final size:88
Alignment explanation
Indices: 23968597--23968858 Score: 391
Period size: 89 Copynumber: 2.9 Consensus size: 88
23968587 CTGATGTTTT
* *
23968597 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTAAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
23968662 TAATTTCAATTTCTGTTTTCTTCA
66 TAATTTCAATTTCTGTTTT-TTCA
* * * *
23968686 ATTTATGTTTTTCAAAAACCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
23968751 TATTTTCAATTTCTG-CTTTTCA
66 TAATTTCAATTTCTGTTTTTTCA
*
23968773 ATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 ATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
23968838 AGGTAATTTCAATTTATGTTT
63 AGGTAATTTCAATTTCTGTTT
23968859 GTCAAAAAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
87 15 0.10
88 2 0.01
89 73 0.48
90 62 0.41
91 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTTTTTCA
Found at i:23968772 original size:14 final size:14
Alignment explanation
Indices: 23968753--23968787 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
23968743 CGCTGAGGTA
23968753 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
23968767 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
23968781 TTTTCAA
1 TTTTCAA
23968788 AAAAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:23969056 original size:73 final size:73
Alignment explanation
Indices: 23968952--23969101 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 73
23968942 CTGCTCTTAA
*
23968952 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCACATGCTGAGGTAATTTCAATTT
23969016 CTGTTTGTC
65 CTGTTTGTC
**
23969025 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGG--CACATGCTGAGGTAATTTCAATT
*
23969090 TCTGTTTTTC
64 TCTGTTTGTC
23969100 AA
1 AA
23969102 TTTCTGTTCG
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
72 2 0.03
73 37 0.53
75 31 0.44
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCACATGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:23969100 original size:14 final size:14
Alignment explanation
Indices: 23969081--23969109 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23969071 TGCTGAGGTC
23969081 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
23969095 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
23969109 T
1 T
23969110 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:23969129 original size:161 final size:161
Alignment explanation
Indices: 23968682--23969324 Score: 739
Period size: 163 Copynumber: 3.9 Consensus size: 161
23968672 TTCTGTTTTC
* * *
23968682 TTCAATTTATGTTTTTCAAAAACCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC-G
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACAG
23968745 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGA
66 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTC---AAAAATCAACTCATATTGCGA
23968810 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
127 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
23968845 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGT-AC
1 TTCAATTTATGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCAC
* * * **
23968909 A-CTGAGTTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTAAAAAAATCAACTCATATTGCGA
64 AGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-T-TTTCAAAAATCAACTCATATTGCGA
*
23968973 GAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAAT
127 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * *
23969008 TTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACAT
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACA-
* * *
23969072 GCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGA
65 GCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGA
23969136 GGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATTTTCAATTAATGTTT
129 GGTGAGTTGAGCCTC-AGGACACGCTGAGG----------TAA----T
* *
23969183 TTCAATTTATGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGGCTC-GGGTCACA
1 TTCAATTTATG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACA
** * ** * *
23969246 TGCCAAGGTATTTCCAAAATCTG-TTTGGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAG
65 -GCTGAGGTATTTTCAATTTCTGCTTT-TCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAG
*
23969310 AAGTGAGTTGAGCCT
128 AGGTGAGTTGAGCCT
23969325 TTGCTCACGT
Statistics
Matches: 417, Mismatches: 36, Indels: 42
0.84 0.07 0.08
Matches are distributed among these distances:
160 3 0.01
161 87 0.21
162 4 0.01
163 117 0.28
165 76 0.18
166 2 0.00
171 3 0.01
174 5 0.01
175 117 0.28
176 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (161 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTCACAG
CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:23969186 original size:14 final size:14
Alignment explanation
Indices: 23969167--23969201 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23969157 CGCTGAGGTA
*
23969167 TTTTCAATTAATGT
1 TTTTCAATTAATGC
*
23969181 TTTTCAATTTATGC
1 TTTTCAATTAATGC
23969195 TTTTCAA
1 TTTTCAA
23969202 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTAATGC
Found at i:23969298 original size:175 final size:175
Alignment explanation
Indices: 23969007--23969324 Score: 460
Period size: 175 Copynumber: 1.8 Consensus size: 175
23968997 GCTGAGGTAA
* *
23969007 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACAT
** * * ** ** * *
23969072 GCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAG
66 GCCAAGGTATTTCCAAAATCTGTTTGGCAAATTCTGTTCGTCAAAATCAACTCATATTGCGAGAA
23969137 GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTT
131 GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTT
* * *
23969182 TTTCAATTTATGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGGCTCGGGTCACA
1 TTTCAATTTATG-TTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACA
*
23969246 TGCCAAGGTATTTCCAAAATCTGTTTGGCAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAG
65 TGCCAAGGTATTTCCAAAATCTGTTTGGCAAATTCTGTTCGTC-AAAATCAACTCATATTGCGAG
23969310 AAGTGAGTTGAGCCT
129 AAGTGAGTTGAGCCT
23969325 TTGCTCACGT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
174 2 0.02
175 120 0.96
176 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (175 bp):
TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCCAAGGTATTTCCAAAATCTGTTTGGCAAATTCTGTTCGTCAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTT
Found at i:23969394 original size:89 final size:87
Alignment explanation
Indices: 23969007--23969411 Score: 433
Period size: 88 Copynumber: 4.6 Consensus size: 87
23968997 GCTGAGGTAA
*
23969007 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAA-TTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
23969072 GCTGAGGTCTTTTCAATTTCTGTT
64 GCTGAGGTATTTTCAATTTCTGTT
* *
23969096 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-GCAC-
1 TTTCAA-TTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACA
**
23969158 -GCTGAGGTATTTTCAATTAATGTT
63 TGCTGAGGTATTTTCAATTTCTGTT
* * * *
23969182 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGGCTCGGGTCACAT
1 TTTCAA-TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
** * **
23969247 GCCAAGGTATTTCCAAAATCTGTT
64 GCTGAGGTATTTTCAATTTCTGTT
** * ** *
23969271 TGGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTG
1 TTTC-AATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
*
23969336 CTGAGCTATTTTTCAATTTCTGTT
65 CTGAGGTA-TTTTCAATTTCTGTT
* * * **
23969360 TTT-AATGTCTAGTTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAAT-TCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
23969412 TCAGGATCAC
Statistics
Matches: 265, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
86 35 0.13
87 44 0.17
88 94 0.35
89 90 0.34
90 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTCAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTATTTTCAATTTCTGTT
Found at i:23970288 original size:10 final size:10
Alignment explanation
Indices: 23970270--23970303 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23970260 AGAGGTTTAG
*
23970270 TTTTGTTCTT
1 TTTTTTTCTT
23970280 TTTTTTTCTT
1 TTTTTTTCTT
23970290 TTTTTCTTCTT
1 TTTTT-TTCTT
23970301 TTT
1 TTT
23970304 GTTCTCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:23970292 original size:11 final size:11
Alignment explanation
Indices: 23970270--23970308 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
23970260 AGAGGTTTAG
*
23970270 TTTTGTTCTTT
1 TTTTCTTCTTT
23970281 TTTT-TTCTTT
1 TTTTCTTCTTT
23970291 TTTTCTTCTTT
1 TTTTCTTCTTT
23970302 TTGTTCT
1 TT-TTCT
23970309 CTGCTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 12 0.46
12 4 0.15
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:23973046 original size:15 final size:15
Alignment explanation
Indices: 23973014--23973048 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23973004 TCTTCCAAAA
**
23973014 TTTTTGTTCTTTGTT
1 TTTTTGTTCTTTCCT
23973029 TTTTTGTTCTTTCCT
1 TTTTTGTTCTTTCCT
23973044 TTTTT
1 TTTTT
23973049 ATCTTTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (15 bp):
TTTTTGTTCTTTCCT
Found at i:23975290 original size:12 final size:12
Alignment explanation
Indices: 23975275--23975305 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23975265 AGTAAAAGTA
23975275 GTAGTACGGTAC
1 GTAGTACGGTAC
23975287 GTAGTACGGTAC
1 GTAGTACGGTAC
*
23975299 ATAGTAC
1 GTAGTAC
23975306 CTCATCGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (12 bp):
GTAGTACGGTAC
Found at i:23975597 original size:17 final size:18
Alignment explanation
Indices: 23975577--23975612 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23975567 AAATAGAAAA
*
23975577 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
23975594 AAGGATAAAAGTTGAATT
1 AAGGATAAAAGTTGAATT
23975612 A
1 A
23975613 TAGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:23975749 original size:15 final size:16
Alignment explanation
Indices: 23975729--23975766 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
23975719 TAATTAATGA
23975729 TATATAAATAT-AATT
1 TATATAAATATGAATT
23975744 TATAT-AATATGAATT
1 TATATAAATATGAATT
23975759 TATGATAA
1 TAT-ATAA
23975767 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 2 0.10
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATAAATATGAATT
Found at i:23975775 original size:29 final size:28
Alignment explanation
Indices: 23975709--23975776 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
23975699 TTTACTTGTT
23975709 TTAAATTATATAATTAATGATATATAAA
1 TTAAATTATATAATTAATGATATATAAA
* *
23975737 TATAATTTATATAA-T-ATGAATTTATGATAA
1 T-TAAATTATATAATTAATG-ATATAT-A-AA
23975767 TTAAATTATA
1 TTAAATTATA
23975777 ATGATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 20 0.61
30 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAAATTATATAATTAATGATATATAAA
Found at i:23977229 original size:24 final size:22
Alignment explanation
Indices: 23977202--23977248 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
23977192 AGGATTTATA
*
23977202 ATATTCCGGGTGTGTTTGGGCTGG
1 ATATT-CGAGTGTGTTTGGG-TGG
*
23977226 ATATTCTAGTGTGTTTGGGTGG
1 ATATTCGAGTGTGTTTGGGTGG
23977248 A
1 A
23977249 ATCCGCGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.13, C:0.09, G:0.38, T:0.40
Consensus pattern (22 bp):
ATATTCGAGTGTGTTTGGGTGG
Found at i:23978136 original size:26 final size:24
Alignment explanation
Indices: 23978096--23978155 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
23978086 TTATTTTATT
* * *
23978096 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
23978120 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
23978146 AAATAAATAT
1 AAATAAATAT
23978156 TCAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:23978318 original size:66 final size:66
Alignment explanation
Indices: 23978248--23978380 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
23978238 ATTTAAAATG
23978248 ATTAAAAATAAAATAAAAAATATATATTAATATATAATTCGGGCCGGGCCAGGCCAAAAAACTCT
1 ATTAAAAATAAAATAAAAAATATATATTAATATATAATTCGGGCCGGGCCAGGCCAAAAAACTCT
23978313 T
66 T
*
23978314 ATTAAAAATAAAATAAAAAATATATATTAATATATAATTCGGGCCGGGCTAGGCCAAAAAACTCT
1 ATTAAAAATAAAATAAAAAATATATATTAATATATAATTCGGGCCGGGCCAGGCCAAAAAACTCT
23978379 T
66 T
23978380 A
1 A
23978381 CCCTAGGCCC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (66 bp):
ATTAAAAATAAAATAAAAAATATATATTAATATATAATTCGGGCCGGGCCAGGCCAAAAAACTCT
T
Found at i:23980712 original size:44 final size:44
Alignment explanation
Indices: 23980661--23980752 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
23980651 CTGAAGTATC
23980661 AGTAACAGTACGAGACA-CA-AAGTGCCTCATCGACACAAAGTCGA
1 AGTAACAGTAC-A-ACACCATAAGTGCCTCATCGACACAAAGTCGA
* * *
23980705 AGTAACAGTACAACACCATTAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACCATAAGTGCCTCATCGACACAAAGTCGA
23980749 AGTA
1 AGTA
23980753 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 3 0.07
43 3 0.07
44 37 0.86
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (44 bp):
AGTAACAGTACAACACCATAAGTGCCTCATCGACACAAAGTCGA
Found at i:23991186 original size:8 final size:8
Alignment explanation
Indices: 23991175--23991218 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
23991165 CTTTTATGTT
23991175 TTATTATA
1 TTATTATA
23991183 TTATT-TAA
1 TTATTAT-A
23991191 TTATTATA
1 TTATTATA
*
23991199 TTAATATA
1 TTATTATA
23991207 TTATTATA
1 TTATTATA
23991215 TTAT
1 TTAT
23991219 ATAGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:23991194 original size:16 final size:17
Alignment explanation
Indices: 23991175--23991221 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 17
23991165 CTTTTATGTT
*
23991175 TTATTATATTATTTA-A
1 TTATTATATTATATATA
23991191 TTATTATATTA-ATATA
1 TTATTATATTATATATA
23991207 TTATTATATTATATA
1 TTATTATATTATATA
23991222 GTTAAGTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 2 0.07
16 23 0.82
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATATTATATATA
Found at i:23991217 original size:24 final size:24
Alignment explanation
Indices: 23991179--23991226 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23991169 TATGTTTTAT
23991179 TATATTATTTAATTATTATA-TTAA
1 TATATTATTTAATTA-TATAGTTAA
23991203 TATATTA-TTATATTATATAGTTAA
1 TATATTATTTA-ATTATATAGTTAA
23991227 GTCTTAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATTATTTAATTATATAGTTAA
Found at i:24008085 original size:45 final size:45
Alignment explanation
Indices: 24008019--24008108 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
24008009 GAAAAATTTA
* *
24008019 GTAAAAATATCCATCATCTGATCTCTGATTTGCAATAAATCAGTT
1 GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
** *
24008064 GTAAAAATATCTGTCACCTGATCTTTGATTTGCAATAAACCAGTT
1 GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
24008109 TCTTCAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (45 bp):
GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
Found at i:24012547 original size:19 final size:18
Alignment explanation
Indices: 24012484--24012547 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
24012474 GTTCGGAAAA
*
24012484 TTTTATAAATTTTTAATT
1 TTTTATAATTTTTTAATT
* * *
24012502 AGTCTATAATTTTTTTATT
1 -TTTTATAATTTTTTAATT
*
24012521 TTAATATAATTTTTATAATT
1 TT-TTATAATTTTT-TAATT
24012541 TTTTATA
1 TTTTATA
24012548 GAGAAAAAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 28 0.80
20 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTTAATT
Found at i:24013834 original size:21 final size:21
Alignment explanation
Indices: 24013808--24013849 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24013798 TTTTTTGCGA
24013808 GAACATTTTCAAATGCTCAAG
1 GAACATTTTCAAATGCTCAAG
24013829 GAACATTTTCAAATGCTCAAG
1 GAACATTTTCAAATGCTCAAG
24013850 ACTTACTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
GAACATTTTCAAATGCTCAAG
Found at i:24024045 original size:75 final size:75
Alignment explanation
Indices: 24023953--24024103 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
24023943 GCGAGAATGC
* * *
24023953 ACTCACCTCCAAGAGGGGACCACCAAGGAGCCACTAGGGTGTAACATTGTACTACCTCAGCCAAT
1 ACTCACCTCCAAAAGGGGACCACCAAGGAACCACTAGGGTGTAACATTGTACTACCTCAGCCAAG
24024018 GGAATGTTAG
66 GGAATGTTAG
*
24024028 ACTCACCTCCAAAAGGGGACCACCAAGGAACCACTAGGGTGTAACATTGTACTACCTCAGCTAAG
1 ACTCACCTCCAAAAGGGGACCACCAAGGAACCACTAGGGTGTAACATTGTACTACCTCAGCCAAG
24024093 GGAATGTTAG
66 GGAATGTTAG
24024103 A
1 A
24024104 ACAATACCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (75 bp):
ACTCACCTCCAAAAGGGGACCACCAAGGAACCACTAGGGTGTAACATTGTACTACCTCAGCCAAG
GGAATGTTAG
Found at i:24033653 original size:16 final size:15
Alignment explanation
Indices: 24033622--24033661 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
24033612 TTTCTTACAT
24033622 TCTTTTTCTTTTTCA
1 TCTTTTTCTTTTTCA
24033637 TCTTTTTC-TTTTC-
1 TCTTTTTCTTTTTCA
*
24033650 TCATTTTCTTTT
1 TCTTTTTCTTTT
24033662 CACTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTTTCTTTTTCA
Found at i:24033658 original size:13 final size:14
Alignment explanation
Indices: 24033625--24033663 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
24033615 CTTACATTCT
*
24033625 TTTTCTTTTTCATCT
1 TTTTC-TTTTCATCA
24033640 TTTTCTTTTC-TCA
1 TTTTCTTTTCATCA
24033653 TTTTCTTTTCA
1 TTTTCTTTTCA
24033664 CTTTCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTCATCA
Found at i:24033729 original size:18 final size:17
Alignment explanation
Indices: 24033686--24033729 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
24033676 GTTTTTCCTC
24033686 TCTTTTTCTCATTTTTAT
1 TCTTTTT-TCATTTTTAT
24033704 T-TTCTTTTACATTTTTAT
1 TCTT-TTTT-CATTTTTAT
24033722 TCTTTTTT
1 TCTTTTTT
24033730 TTTCTCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTTTTCATTTTTAT
Found at i:24036208 original size:74 final size:74
Alignment explanation
Indices: 24036099--24036245 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 74
24036089 GTATAAAGAT
* * *
24036099 AGGTAATGGAAATAGGTTCAAAATTGGCTAAGTATAAGTTGATTAGGTTCGGCTAACAAAGAAAG
1 AGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGAAAG
24036164 TAAATTGAG
66 TAAATTGAG
*
24036173 AGGTAATAGAAATAGGTTTAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGAAAG
1 AGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGAAAG
24036238 TAAATTGA
66 TAAATTGA
24036246 ATAGTTTAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.28
Consensus pattern (74 bp):
AGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGAAAG
TAAATTGAG
Found at i:24037512 original size:10 final size:10
Alignment explanation
Indices: 24037485--24037514 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24037475 AGAAATAAAG
*
24037485 ATGAGCTCAA
1 ATGAGCTGAA
24037495 ATGAGCTGAA
1 ATGAGCTGAA
24037505 ATGAGCTGAA
1 ATGAGCTGAA
24037515 CTAAGCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (10 bp):
ATGAGCTGAA
Found at i:24045627 original size:29 final size:29
Alignment explanation
Indices: 24045585--24045643 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24045575 TCAAGATGAG
24045585 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTTAATGAAATGATTACATTATCTAT
24045614 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTTAATGAAATGATTACATTATCTAT
24045643 G
1 G
24045644 TATTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (29 bp):
GAATTTAATGAAATGATTACATTATCTAT
Found at i:24045656 original size:29 final size:29
Alignment explanation
Indices: 24045585--24045656 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
24045575 TCAAGATGAG
* *
24045585 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTAAATAAAATGATTACATTATCTAT
* *
24045614 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTAAATAAAATGATTACATTATCTAT
*
24045643 GTATTAAATAAAAT
1 GAATTAAATAAAAT
24045657 ACTATTAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (29 bp):
GAATTAAATAAAATGATTACATTATCTAT
Found at i:24045713 original size:20 final size:20
Alignment explanation
Indices: 24045687--24045727 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24045677 AATTGAGAAA
*
24045687 TTAAATTAAAATAATATATAT
1 TTAATTTAAAATAA-ATATAT
*
24045708 TTAATTTTAAATAAATATAT
1 TTAATTTAAAATAAATATAT
24045728 AATTATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATTTAAAATAAATATAT
Found at i:24046070 original size:12 final size:14
Alignment explanation
Indices: 24046033--24046100 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 14
24046023 TTTTAATTTG
*
24046033 TTAAATTGATTATGAT
1 TTAAATTAATTAT--T
24046049 TTAAATTAATT-TT
1 TTAAATTAATTATT
24046062 TTAAA-TAATTATT
1 TTAAATTAATTATT
*
24046075 TT--TTTAATTATT
1 TTAAATTAATTATT
*
24046087 TTGAATTAATTATT
1 TTAAATTAATTATT
24046101 ATACAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 15 0.33
13 10 0.22
14 9 0.20
15 1 0.02
16 10 0.22
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TTAAATTAATTATT
Found at i:24047059 original size:18 final size:17
Alignment explanation
Indices: 24047009--24047063 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
24046999 TTTCTTAGAA
*
24047009 TTTTGT-ATCTCGTAACT
1 TTTTGTAATCTCATAA-T
*
24047026 TTTTGTATTC-CATAAT
1 TTTTGTAATCTCATAAT
24047042 TATTTGTAATCTCATAAT
1 T-TTTGTAATCTCATAAT
24047060 TTTT
1 TTTT
24047064 AGTATGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTTGTAATCTCATAAT
Found at i:24048245 original size:48 final size:48
Alignment explanation
Indices: 24048180--24048273 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
24048170 TGTGACACAC
* * * *
24048180 CCGTGTGAGGTGGCTTAGGACG-GTTTAGAGTCTGCTAAATAGACACGG
1 CCGTGTGAGGTGACTTAGGCCGTG-TTACAATCTGCTAAATAGACACGG
*
24048228 CCGTGTG-GTGTGACTTAGGCCGTGTTACAATCTGTTAAATAGACAC
1 CCGTGTGAG-GTGACTTAGGCCGTGTTACAATCTGCTAAATAGACAC
24048274 AGGTGTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 1 0.03
48 37 0.95
49 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (48 bp):
CCGTGTGAGGTGACTTAGGCCGTGTTACAATCTGCTAAATAGACACGG
Found at i:24053540 original size:20 final size:20
Alignment explanation
Indices: 24053450--24053556 Score: 64
Period size: 20 Copynumber: 5.3 Consensus size: 20
24053440 TACTTCACAA
*
24053450 ATATATACATATACT-AAAAT
1 ATATATA-ATATAATAAAAAT
*
24053470 ATACATAATA-ATATATAAAAT
1 ATATATAATATA-ATA-AAAAT
*
24053491 ATA-AT-AT-TAAAAAACACAT
1 ATATATAATATAATAAA-A-AT
* *
24053510 GTATATGATAT-ATGAAAAAT
1 ATATATAATATAAT-AAAAAT
24053530 ATATATAATATAATAAAAAT
1 ATATATAATATAATAAAAAT
*
24053550 ACATATA
1 ATATATA
24053557 TATGTAATAC
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
17 2 0.03
18 4 0.06
19 11 0.16
20 33 0.49
21 14 0.21
22 4 0.06
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.33
Consensus pattern (20 bp):
ATATATAATATAATAAAAAT
Found at i:24053555 original size:22 final size:22
Alignment explanation
Indices: 24053489--24053558 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
24053479 AATATATAAA
* *
24053489 ATATAATATTA-AAAAACACAT
1 ATATAATATAATAAAAATACAT
*
24053510 GTAT-ATGATATATGAAAAAT--AT
1 ATATAAT-ATA-AT-AAAAATACAT
24053532 ATATAATATAATAAAAATACAT
1 ATATAATATAATAAAAATACAT
24053554 ATATA
1 ATATA
24053559 TGTAATACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
20 8 0.21
21 7 0.18
22 16 0.42
23 2 0.05
24 5 0.13
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATAATATAATAAAAATACAT
Found at i:24053994 original size:3 final size:3
Alignment explanation
Indices: 24053986--24054026 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
24053976 GAAATATACT
* *
24053986 TAA TAA TAA TAA GAA TAA TAG TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24054027 ACATATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:24054034 original size:17 final size:17
Alignment explanation
Indices: 24053986--24054026 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24053976 GAAATATACT
*
24053986 TAATAATAATAAGAATAA
1 TAATAATAAT-ATAATAA
*
24054004 TAGTAATAATATAATAA
1 TAATAATAATATAATAA
24054021 TAATAA
1 TAATAA
24054027 ACATATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:24054526 original size:18 final size:19
Alignment explanation
Indices: 24054505--24054558 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
24054495 AAGAAAAAAA
24054505 AAAGAGA-AGAAGGGAGAG
1 AAAGAGAGAGAAGGGAGAG
*
24054523 AAAGAGAGAGGAGGGAGAAGGG
1 AAAGAGAGAGAAGGGAG-A--G
24054545 AAAG-GAGAGAAGGG
1 AAAGAGAGAGAAGGG
24054559 GGGCTACCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 1 0.03
21 9 0.30
22 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (19 bp):
AAAGAGAGAGAAGGGAGAG
Found at i:24054539 original size:19 final size:18
Alignment explanation
Indices: 24054505--24054540 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24054495 AAGAAAAAAA
24054505 AAAGAGAAGAAGGGAGAG
1 AAAGAGAAGAAGGGAGAG
*
24054523 AAAGAGAGAGGAGGGAGA
1 AAAGAGA-AGAAGGGAGA
24054541 AGGGAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (18 bp):
AAAGAGAAGAAGGGAGAG
Found at i:24062496 original size:19 final size:21
Alignment explanation
Indices: 24062454--24062496 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24062444 TTACTCAAAG
24062454 AAAGCCGATTGATCCATCTCA
1 AAAGCCGATTGATCCATCTCA
24062475 AAAGCCGGATT-ATCC-T-TCA
1 AAAGCC-GATTGATCCATCTCA
24062494 AAA
1 AAA
24062497 CTGAAGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 10 0.48
22 4 0.19
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAGCCGATTGATCCATCTCA
Found at i:24066850 original size:22 final size:21
Alignment explanation
Indices: 24066812--24066855 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
24066802 CTTTTCTCTC
*
24066812 TATTCTCTTGTTATTTACTGT
1 TATTCTCTTGTTATTTAATGT
24066833 TATT-TCTTGTTTATTTTAATGT
1 TATTCTCTTG-TTA-TTTAATGT
24066855 T
1 T
24066856 TTTTTATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.66
Consensus pattern (21 bp):
TATTCTCTTGTTATTTAATGT
Found at i:24078183 original size:40 final size:41
Alignment explanation
Indices: 24078131--24078222 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
24078121 TAATATTCTG
* *
24078131 ATCTGTATTCTATATTTGATAGGACTGAGGCCCTA-ATATAT
1 ATCTG-ATTCTATATCTGATAGGACTAAGGCCCTATATATAT
* * *
24078172 TTCTGATTCTATATCTGATTGGGCTAAGGCCCTATTATATAT
1 ATCTGATTCTATATCTGATAGGACTAAGGCCCTA-TATATAT
24078214 ATCTGATTC
1 ATCTGATTC
24078223 GACATCCGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 25 0.58
41 4 0.09
42 14 0.33
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (41 bp):
ATCTGATTCTATATCTGATAGGACTAAGGCCCTATATATAT
Found at i:24078237 original size:42 final size:40
Alignment explanation
Indices: 24078158--24078245 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 40
24078148 GATAGGACTG
* * * * *
24078158 AGGCCCTAATATATTTCTGATTCTATATCTGATTGGGCTA
1 AGGCCCTAATATATATCTGATTCGACATCCGAGTGGGCTA
24078198 AGGCCCTATTATATATATCTGATTCGACATCCGAGTGGGCTA
1 AGGCCCTA--ATATATATCTGATTCGACATCCGAGTGGGCTA
24078240 AGGCCC
1 AGGCCC
24078246 AAACTCTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 8 0.20
42 33 0.80
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (40 bp):
AGGCCCTAATATATATCTGATTCGACATCCGAGTGGGCTA
Found at i:24082668 original size:20 final size:20
Alignment explanation
Indices: 24082643--24082681 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24082633 TAATTTTTAA
24082643 ATATAAAATTTTCATCAATT
1 ATATAAAATTTTCATCAATT
24082663 ATATAAAATTTTCATCAAT
1 ATATAAAATTTTCATCAAT
24082682 AAACTCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAAAATTTTCATCAATT
Found at i:24087114 original size:24 final size:24
Alignment explanation
Indices: 24087060--24087111 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
24087050 ATGGTAAGCC
*
24087060 AAAAGAAAAGGAAGGAAAAAAGAA
1 AAAAGAAAAGGAAAGAAAAAAGAA
* *
24087084 AAAAGAAAAGGAAAAGAAGAACGAA
1 AAAAGAAAAGG-AAAGAAAAAAGAA
24087109 AAA
1 AAA
24087112 GAAGAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAGGAAAGAAAAAAGAA
Found at i:24089178 original size:18 final size:18
Alignment explanation
Indices: 24089155--24089223 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
24089145 TTTATACAAA
24089155 TAATTCGGTTAATTTAGT
1 TAATTCGGTTAATTTAGT
** *
24089173 TAATTCAGG-TAATTCGGG
1 TAATTC-GGTTAATTTAGT
*
24089191 TAATTCGGTTAA-TTCGAT
1 TAATTCGGTTAATTTAG-T
24089209 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
24089224 TATATTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTAGT
Done.